Federal agents on Thursday afternoon wrapped up their search of The Scooter Store's offices in New Braunfels.

Many employees who work in The Scooter Store's main offices, a three-story building, returned to work at 9 a.m. Thursday, a day after federal agents raided the property.

Those assigned to an adjacent building that houses computer servers and billing data didn't report back until 2:30 p.m. so authorities could complete their search of the building.

FBI Special Agent Erik Vasys confirmed the search had concluded but still could not provide any details on why search warrants were executed Wednesday.

The company is one of the nation's largest suppliers of scooters and power wheelchairs.

A source familiar with the investigation said authorities were looking for details of how the company bills for its equipment. The search warrants were filed under seal.

About 150 law enforcement offices — including from the FBI, the Office of the Inspector General of the U.S. Department of Health and Human Services and the Texas attorney general's Medicaid Fraud Control — swarmed The Scooter Store's offices Wednesday.

In an email to employees sent Thursday morning, CEO Martin “Marty” Landon called Wednesday a “confusing and troubling day for many of us.”

The company's buildings were searched as part of an “ongoing investigation,” he added. “We are cooperating fully with the investigation.”

As part of the investigation, Landon told employees that The Scooter Store's IT systems were temporarily disabled. The systems are now operating normally, and workers began accepting inbound calls from customers.

“I know this is a difficult time but our best remedy, I believe, is to continue to cooperate fully in this investigation and to serve our customers with a high level of quality, integrity and service,” Landon wrote to employees.

Employees have been instructed to tell customers that the company is in full compliance with all federal rules and regulations.

The Scooter Store has had to deal with a variety of issues of late.

Last year, it was discovered that The Scooter Store received anywhere from $46.8 million to $87.7 million in Medicare overpayments from 2009 to 2011.

The company determined the overpayments were only $19.5 million. The Centers for Medicare & Medicaid Services (CMS) agreed to accept that amount in repayment. The Scooter Store was given five years to pay it back.

In December, two U.S. senators in a letter to CMS asked why the agency accepted an amount “significantly less” than it was overpaid.

Earlier this month, The Scooter Store issued pink slips to 150 workers after CMS announced that Medicare would pay on average 36 percent less for scooters and power chairs starting July 1.